[med-svn] r269 - trunk/packages/melting/trunk/debian/patches
Charles Plessy
charles-guest at alioth.debian.org
Thu Apr 12 10:59:18 UTC 2007
Author: charles-guest
Date: 2007-04-12 10:59:18 +0000 (Thu, 12 Apr 2007)
New Revision: 269
Added:
trunk/packages/melting/trunk/debian/patches/decode.c_to-unicode.patch
trunk/packages/melting/trunk/debian/patches/makefile.patch
trunk/packages/melting/trunk/debian/patches/melting.c_silent.patch
trunk/packages/melting/trunk/debian/patches/melting.c_to-unicode.patch
trunk/packages/melting/trunk/debian/patches/tkmelting.patch
Modified:
trunk/packages/melting/trunk/debian/patches/series
Log:
Suppressing some output and converting some other to Unicode.
Added: trunk/packages/melting/trunk/debian/patches/decode.c_to-unicode.patch
===================================================================
--- trunk/packages/melting/trunk/debian/patches/decode.c_to-unicode.patch 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/decode.c_to-unicode.patch 2007-04-12 10:59:18 UTC (rev 269)
@@ -0,0 +1,40 @@
+--- ./SRC/decode.c 2007-04-12 17:40:21.000000000 +0900
++++ ./SRC/decode.c.debian 2007-04-12 19:56:46.000000000 +0900
+@@ -3,7 +3,7 @@
+ * This program computes for a nucleotide probe, the enthalpy, the entropy *
+ * and the melting temperature of the binding to its complementary template. *
+ * Three types of hybridisation are possible: DNA/DNA, DNA/RNA, and RNA/RNA. *
+- * Copyright (C) Nicolas Le Novère 1997-2002 *
++ * Copyright (C) Nicolas Le Novère 1997-2002 *
+ * *
+ * File: decode.c *
+ * Date: 18/FEB/2002 *
+@@ -24,8 +24,8 @@
+ along with this program; if not, write to the Free Software
+ Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
+
+- Nicolas Le Novère
+- Récepteurs et cognition, Institut Pasteur
++ Nicolas Le Novère
++ Récepteurs et cognition, Institut Pasteur
+ 75724 Paris cedex, France. e-mail: lenov at pasteur.fr
+ */
+
+@@ -726,7 +726,7 @@
+ **************************/
+
+ void legal(void){
+- fprintf(OUTPUT," Melting is copyright (C) 1997, 2000 by Nicolas Le Novère\n\n");
++ fprintf(OUTPUT," Melting is copyright (C) 1997, 2000 by Nicolas Le Novère\n\n");
+ fprintf(OUTPUT," This program is free software; you can redistribute it\n");
+ fprintf(OUTPUT," and/or modify it under the terms of the GNU General Public\n");
+ fprintf(OUTPUT," License as published by the Free Software Foundation;\n");
+@@ -741,7 +741,7 @@
+ fprintf(OUTPUT," License along with this program; if not, write to the Free\n");
+ fprintf(OUTPUT," Software Foundation, Inc., 59 Temple Place, Suite 330,\n");
+ fprintf(OUTPUT," Boston, MA 02111-1307 USA\n\n");
+- fprintf(OUTPUT," Nicolas Le Novère, Receptors and Cognition, Institut Pasteur\n");
++ fprintf(OUTPUT," Nicolas Le Novère, Receptors and Cognition, Institut Pasteur\n");
+ fprintf(OUTPUT," rue du Dr Roux, 75724 Paris cedex, France\n");
+ fprintf(OUTPUT," lenov at pasteur.fr\n");
+ }
Added: trunk/packages/melting/trunk/debian/patches/makefile.patch
===================================================================
--- trunk/packages/melting/trunk/debian/patches/makefile.patch 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/makefile.patch 2007-04-12 10:59:18 UTC (rev 269)
@@ -0,0 +1,11 @@
+--- ./makefile.unices 2007-04-12 17:40:22.000000000 +0900
++++ ./makefile.unices.debian 2007-04-12 18:37:59.000000000 +0900
+@@ -37,7 +37,7 @@
+
+ # where to find the files containing the sets of nearest_neighbor parameters.
+ # This one is to initialise the default value of melting.
+-NNDIR = $(prefix)/share/MELTING/NNFILES
++NNDIR = /usr/share/melting/NNFILES
+
+ #INSTALL = /usr/bin/install -c
+ VPATH = $(srcdir)
Added: trunk/packages/melting/trunk/debian/patches/melting.c_silent.patch
===================================================================
--- trunk/packages/melting/trunk/debian/patches/melting.c_silent.patch 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/melting.c_silent.patch 2007-04-12 10:59:18 UTC (rev 269)
@@ -0,0 +1,17 @@
+--- ./SRC/melting.c 2007-04-12 17:40:21.000000000 +0900
++++ ./SRC/melting.c.debian 2007-04-12 19:55:06.000000000 +0900
+@@ -134,9 +134,11 @@
+
+ /* read the environment variable specifying the repository directory */
+ if ( (ps_getenv = getenv("NN_PATH")) == NULL){
+- fprintf(ERROR," The environment variable NN_PATH is not defined. I will\n"
+- " therefore use the default value defined during the compilation\n"
+- " to look for the file containing the regular parameters.\n");
++/* Be silent please */
++/* fprintf(ERROR," The environment variable NN_PATH is not defined. I will\n"
++ * " therefore use the default value defined during the compilation\n"
++ * " to look for the file containing the regular parameters.\n");
++ */
+ ps_getenv = NN_BASE;
+ }
+
Added: trunk/packages/melting/trunk/debian/patches/melting.c_to-unicode.patch
===================================================================
--- trunk/packages/melting/trunk/debian/patches/melting.c_to-unicode.patch 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/melting.c_to-unicode.patch 2007-04-12 10:59:18 UTC (rev 269)
@@ -0,0 +1,56 @@
+--- ./SRC/melting.c 2007-04-12 17:40:21.000000000 +0900
++++ ./SRC/melting.c.debian 2007-04-12 19:19:12.000000000 +0900
+@@ -3,7 +3,7 @@
+ * This program computes for a nucleotide probe, the enthalpy, the entropy *
+ * and the melting temperature of the binding to its complementary template. *
+ * Three types of hybridisation are possible: DNA/DNA, DNA/RNA, and RNA/RNA. *
+- * Copyright (C) Nicolas Le Novère 1997-2003 *
++ * Copyright (C) Nicolas Le Novère 1997-2003 *
+ * *
+ * File: melting.c *
+ * Date: 10/APR/2003 *
+@@ -24,7 +24,7 @@
+ along with this program; if not, write to the Free Software
+ Foundation, Inc., 59 Temple Place, Suite 330, Boston, MA 02111-1307 USA
+
+- Nicolas Le Novère
++ Nicolas Le Novère
+ Department of Zoology, University of Cambridge, Downing street
+ CB2 3EJ Cambridge, UK. e-mail: nl223 at cus.cam.ac.uk
+ */
+@@ -403,7 +403,7 @@
+ fprintf(OUTFILE,"* This program computes for a nucleotide probe, the enthalpy, the entropy *\n");
+ fprintf(OUTFILE,"* and the melting temperature of the binding to its complementary template. *\n");
+ fprintf(OUTFILE,"* Three types of hybridisation are possible: DNA/DNA, DNA/RNA, and RNA/RNA. *\n");
+- fprintf(OUTFILE,"* Copyright (C) Nicolas Le Novère 1997-2002 *\n");
++ fprintf(OUTFILE,"* Copyright (C) Nicolas Le Novère 1997-2002 *\n");
+ fprintf(OUTFILE,"******************************************************************************\n");
+ fprintf(OUTFILE,"\n");
+ fprintf(OUTFILE,"sequence : %s\n",pst_param->ps_sequence);
+@@ -499,7 +499,7 @@
+ } else {
+ fprintf(OUTFILE," Sequence length above threshold: approximative mode\n");
+ }
+- fprintf(OUTFILE," Melting temperature: %5.2f °C\n", pst_results->d_tm);
++ fprintf(OUTFILE," Melting temperature: %5.2f °C\n", pst_results->d_tm);
+ fclose(OUTFILE);
+ } else { /* OUTPUT ON STDIN */
+ /*+-------------------------------------------------+
+@@ -512,7 +512,7 @@
+ fprintf(VERBOSE,"* This program computes for a nucleotide probe, the enthalpy, the entropy *\n");
+ fprintf(VERBOSE,"* and the melting temperature of the binding to its complementary template. *\n");
+ fprintf(VERBOSE,"* Three types of hybridisation are possible: DNA/DNA, DNA/RNA, and RNA/RNA. *\n");
+- fprintf(VERBOSE,"* Copyright (C) Nicolas Le Novère 1997-2002 *\n");
++ fprintf(VERBOSE,"* Copyright (C) Nicolas Le Novère 1997-2002 *\n");
+ fprintf(VERBOSE,"******************************************************************************\n");
+ fprintf(VERBOSE,"\n");
+ fprintf(VERBOSE,"sequence : %s\n",pst_param->ps_sequence);
+@@ -607,7 +607,7 @@
+ fprintf(OUTPUT," Sequence length above threshold: approximative mode\n");
+ }
+
+- fprintf(OUTPUT," Melting temperature: %5.2f °C\n", pst_results->d_tm);
++ fprintf(OUTPUT," Melting temperature: %5.2f °C\n", pst_results->d_tm);
+ }
+ /* This way of output the results is heavy and not satisfying ... */
+
Modified: trunk/packages/melting/trunk/debian/patches/series
===================================================================
--- trunk/packages/melting/trunk/debian/patches/series 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/series 2007-04-12 10:59:18 UTC (rev 269)
@@ -1 +1,5 @@
+makefile.patch
tkmelting.patch
+melting.c_to-unicode.patch
+melting.c_silent.patch
+decode.c_to-unicode.patch
Added: trunk/packages/melting/trunk/debian/patches/tkmelting.patch
===================================================================
--- trunk/packages/melting/trunk/debian/patches/tkmelting.patch 2007-04-12 01:04:13 UTC (rev 268)
+++ trunk/packages/melting/trunk/debian/patches/tkmelting.patch 2007-04-12 10:59:18 UTC (rev 269)
@@ -0,0 +1,11 @@
+--- ./BIN/tkmelting.pl 2007-04-12 17:40:22.000000000 +0900
++++ ./BIN/tkmelting.pl.debian 2007-04-12 18:39:12.000000000 +0900
+@@ -398,7 +398,7 @@
+ )->pack(-expand => 1,
+ -fill => 'both'
+ );
+- open(FH,"melting.hlp") || die "unable to open melting.hlp";
++ open(FH,"/usr/share/melting/melting.hlp") || die "unable to open melting.hlp";
+ while (<FH>){
+ $helpText->insert('end', $_);
+ }
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